BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 015555
(405 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4HV4|A Chain A, 2.25 Angstrom Resolution Crystal Structure Of
Udp-N-Acetylmuramate--L- Alanine Ligase (Murc) From
Yersinia Pestis Co92 In Complex With Amp
pdb|4HV4|B Chain B, 2.25 Angstrom Resolution Crystal Structure Of
Udp-N-Acetylmuramate--L- Alanine Ligase (Murc) From
Yersinia Pestis Co92 In Complex With Amp
Length = 494
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 32/75 (42%), Gaps = 6/75 (8%)
Query: 208 EIVKSEGFEISQPALDPNSTEIHHKFTIRARTKKFHRR---VYDLRGSVKCTNIS-EGPP 263
E++ +EG++IS L PNS H T FH R V D V T IS + P
Sbjct: 40 EVLANEGYQISGSDLAPNSVTQH--LTALGAQIYFHHRPENVLDASVVVVSTAISADNPE 97
Query: 264 CTGFVEGMAPVFSRS 278
E PV R+
Sbjct: 98 IVAAREARIPVIRRA 112
>pdb|3RF7|A Chain A, Crystal Structure Of An Iron-Containing Alcohol
Dehydrogenase (Sden_2133) From Shewanella Denitrificans
Os-217 At 2.12 A Resolution
Length = 375
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 30/109 (27%), Positives = 44/109 (40%), Gaps = 25/109 (22%)
Query: 278 SAWYCAWHLIQNDLVHGWGMDMKLGYCAQGDRT-------KNVGIIDSEYVVHQGI---- 326
S+ Y W LI+N VH G+ G A+ RT + +G ++S+Y V I
Sbjct: 138 SSEYQGWDLIKNPAVHHIGIPTVSGTGAEASRTAVLCGPVRKLG-LNSDYTVFDQIIXDS 196
Query: 327 QTLGGQPPTR-------------KSLQSTKREELAKRHGPAPVDLRAEI 362
+ + G P + +SLQ T E AK DL E+
Sbjct: 197 ELIAGVPTDQWFYTGXDCFIHCVESLQGTYLNEFAKAFAEKSXDLCREV 245
>pdb|2X2Z|A Chain A, Crystal Structure Ama1 From Toxoplasma Gondii
pdb|2X2Z|B Chain B, Crystal Structure Ama1 From Toxoplasma Gondii
pdb|2X2Z|D Chain D, Crystal Structure Ama1 From Toxoplasma Gondii
pdb|2X2Z|E Chain E, Crystal Structure Ama1 From Toxoplasma Gondii
Length = 456
Score = 28.9 bits (63), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 31/72 (43%), Gaps = 10/72 (13%)
Query: 273 PVFSRSAWYCAWHLIQNDLVHGWGMDMKLGY----------CAQGDRTKNVGIIDSEYVV 322
P+ S+++W W L Q+D H G+ G+ CA D+ + + DS V
Sbjct: 280 PLTSQASWNDWWPLHQSDQPHSGGVGRNYGFYYVDTTGEGKCALSDQVPDCLVSDSAAVS 339
Query: 323 HQGIQTLGGQPP 334
+ +L + P
Sbjct: 340 YTAAGSLSEETP 351
>pdb|2Y8T|A Chain A, Co-Structure Of Ama1 With A Surface Exposed Region Of Ron2
From Toxoplasma Gondii
pdb|2Y8T|D Chain D, Co-Structure Of Ama1 With A Surface Exposed Region Of Ron2
From Toxoplasma Gondii
Length = 432
Score = 28.9 bits (63), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 31/72 (43%), Gaps = 10/72 (13%)
Query: 273 PVFSRSAWYCAWHLIQNDLVHGWGMDMKLGY----------CAQGDRTKNVGIIDSEYVV 322
P+ S+++W W L Q+D H G+ G+ CA D+ + + DS V
Sbjct: 285 PLTSQASWNDWWPLHQSDQPHSGGVGRNYGFYYVDTTGEGKCALSDQVPDCLVSDSAAVS 344
Query: 323 HQGIQTLGGQPP 334
+ +L + P
Sbjct: 345 YTAAGSLSEETP 356
>pdb|2Y8R|A Chain A, Crystal Structure Of Apo Ama1 Mutant (Tyr230ala) From
Toxoplasma Gondii
pdb|2Y8R|B Chain B, Crystal Structure Of Apo Ama1 Mutant (Tyr230ala) From
Toxoplasma Gondii
pdb|2Y8R|D Chain D, Crystal Structure Of Apo Ama1 Mutant (Tyr230ala) From
Toxoplasma Gondii
pdb|2Y8R|E Chain E, Crystal Structure Of Apo Ama1 Mutant (Tyr230ala) From
Toxoplasma Gondii
pdb|2Y8S|A Chain A, Co-Structure Of An Ama1 Mutant (Y230a) With A Surface
Exposed Region Of Ron2 From Toxoplasma Gondii
pdb|2Y8S|D Chain D, Co-Structure Of An Ama1 Mutant (Y230a) With A Surface
Exposed Region Of Ron2 From Toxoplasma Gondii
Length = 432
Score = 28.9 bits (63), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 31/72 (43%), Gaps = 10/72 (13%)
Query: 273 PVFSRSAWYCAWHLIQNDLVHGWGMDMKLGY----------CAQGDRTKNVGIIDSEYVV 322
P+ S+++W W L Q+D H G+ G+ CA D+ + + DS V
Sbjct: 285 PLTSQASWNDWWPLHQSDQPHSGGVGRNYGFYYVDTTGEGKCALSDQVPDCLVSDSAAVS 344
Query: 323 HQGIQTLGGQPP 334
+ +L + P
Sbjct: 345 YTAAGSLSEETP 356
>pdb|2B0C|A Chain A, The Crystal Structure Of The Putative Phosphatase From
Escherichia Coli
Length = 206
Score = 28.1 bits (61), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 179 HPDVVSNYDYIFLWDEDLGVENFDPRRYLEIVKSEGFEISQPA-LDPNSTEI 229
+P++ D+I+L +DLG+ + R Y ++++EGF S D N+ I
Sbjct: 128 YPEIRDAADHIYL-SQDLGMRKPEARIYQHVLQAEGFSPSDTVFFDDNADNI 178
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.322 0.136 0.430
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,308,290
Number of Sequences: 62578
Number of extensions: 514057
Number of successful extensions: 956
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 955
Number of HSP's gapped (non-prelim): 10
length of query: 405
length of database: 14,973,337
effective HSP length: 101
effective length of query: 304
effective length of database: 8,652,959
effective search space: 2630499536
effective search space used: 2630499536
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)